pypi: PyMOL | Projects | Ecosyste.ms: Papers

10.1016/j.str.2017.01.002

Crystal Structure of the Heterotrimeric Integrin-Binding Region of Laminin-111
Cited by: 28
Author(s): David Pulido, Sadaf-Ahmahni Hussain, Erhard Hohenester
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pgen.1009215

Bud23 promotes the final disassembly of the small subunit Processome in Saccharomyces cerevisiae
Cited by: 12
Author(s): Joshua J. Black, Richa Sardana, Ezzeddine W. Elmir, Arlen Johnson
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pcbi.1008140

A steady-state model of microbial acclimation to substrate limitation
Cited by: 13
Author(s): John R. Casey, Michael J. Follows
Software Mentions: 3
Published: about 5 years ago

10.3389/fmolb.2020.603983

Identification of the Interactions Interference Between the PH and START Domain of CERT by Limonoid and HPA Inhibitors
Cited by: 1
Author(s): Mariem Ghoula, Axelle Le Marec, Christophe Magnan, Hervé Le Stunff, Olivier Taboureau
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41598-019-40762-9

Meta-analysis suggests evidence of novel stress-related pathway components in Orsay virus - Caenorhabditis elegans viral model
Cited by: 3
Author(s): Prachi Mishra, Jessica Ngo, Jahanshah Ashkani, Frédéric Pio
Software Mentions: 3
Published: over 6 years ago

10.1093/gbe/evab125

Homology and Modular Evolution of CATCHR at the Origin of the Eukaryotic Endomembrane System
Cited by: 9
Author(s): Carlos Santana-Molina, Fernando Gutiérrez, Damien P. Devos
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pgen.1008964

The evolution and functional divergence of the histone H2B family in plants
Cited by: 42
Author(s): Dazong Jiang, Michael Borg, Zdravko J. Lorković, Sean A. Montgomery, Akihisa Osakabe, Ramesh Yelagandula, Elin Axelsson, Frédéric Berger
Software Mentions: 3
Published: over 5 years ago

10.1007/s00792-013-0542-8

The role of disulfide bond in hyperthermophilic endocellulase
Cited by: 13
Author(s): Han-Woo Kim, Kazuhiko Ishikawa
Software Mentions: 3
Published: over 12 years ago

10.7554/eLife.22037

Operon mRNAs are organized into ORF-centric structures that predict translation efficiency
Cited by: 119
Author(s): David H Burkhardt, Silvi Rouskin, Yan Zhang, Gene-Wei Li, Jonathan S. Weissman, Carol A. Gross
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.pone.0045379

BioFET-SIM Web Interface: Implementation and Two Applications
Cited by: 10
Author(s): Martin R. Hediger, Jan H. Jensen, Luca De Vico
Software Mentions: 2
Published: about 13 years ago

10.1371/journal.pone.0099408

Ensemble Generation and the Influence of Protein Flexibility on Geometric Tunnel Prediction in Cytochrome P450 Enzymes
Cited by: 16
Author(s): Laura J. Kingsley, Markus A. Lill
Software Mentions: 2
Published: over 11 years ago

10.1155/2016/8683713

Structural Stability, Transitions, and Interactions within SoxYZCD-Thiosulphate from Sulfurimonas denitrificans: An In Silico Molecular Outlook for Maintaining Environmental Sulphur Cycle
Cited by: 1
Author(s): Sujay Ray, Arundhati Banerjee
Software Mentions: 2
Published: about 9 years ago

10.1242/jcs.258399

Maintenance of complex I and its supercomplexes by NDUF-11 is essential for mitochondrial structure, function and health
Cited by: 13
Author(s): Amber Knapp-Wilson, Gonçalo C. Pereira, Emma Buzzard, Holly C Ford, A. Richardson, Robin A. Corey, Chris Neal, Paul Verkade, Andrew P. Halestrap, Vicki A. M. Gold, Patricia E. Kuwabara, Ian Collinson
Software Mentions: 2
Published: over 4 years ago

10.1016/j.bpj.2015.06.061

Structure, Dynamics, and Allosteric Potential of Ionotropic Glutamate Receptor N-Terminal Domains
Cited by: 26
Author(s): James Krieger, İvet Bahar, Ingo H. Greger
Software Mentions: 2
Published: about 10 years ago

10.1111/jcmm.13547

Humanization of fibroblast growth factor 1 single‐chain antibody and validation for its antitumorigenic efficacy in breast cancer and glioma cells
Cited by: 11
Author(s): Xiaomin He, Shuyuan Du, Shiqian Gao, Jing‐Ying Chen, Ran‐Juan Cao, Zhenkai Xing, Alia Rizvi Syeda Kazim, Huali Yu, Qing‐Chuan Zheng, Xinen Zhu
Software Mentions: 2
Published: over 7 years ago

10.3390/insects12090827

Identification of Core Genes of Toll-like Receptor Pathway from Lymantria dispar and Induced Expression upon Immune Stimulant
Cited by: 3
Author(s): Long Liu, Yu‐Shan Wei, Dun Wang
Software Mentions: 2
Published: about 4 years ago

10.1210/js.2019-00260

Using Structural Analysis In Silico to Assess the Impact of Missense Variants in MEN1
Cited by: 14
Author(s): Richard Caswell, Martina Owens, Adam C. Gunning, Sian Ellard, Caroline F. Wright
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pcbi.1003007

Cleavage Entropy as Quantitative Measure of Protease Specificity
Cited by: 50
Author(s): Julian E. Fuchs, Susanne von Grafenstein, Roland G. Huber, Michael A. Margreiter, Gudrun M. Spitzer, Hannes G. Wallnoefer, Klaus R. Liedl
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0081526

Structural Insights into the Mechanism for Recognizing Substrate of the Cytochrome P450 Enzyme TxtE
Cited by: 18
Author(s): Feng Yu, Minjun Li, Chunyan Xu, Zhijun Wang, Huan Zhou, Min Yang, Yaxing Chen, Lin Tang, Jianhua He
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0089027

Distinct Structural Features of the Peroxide Response Regulator from Group A Streptococcus Drive DNA Binding
Cited by: 13
Author(s): Chang Hong Lin, Shi-Yu Chao, Michal Hammel, Jay C. Nix, Hsiao-Ling Tseng, Chih-Cheng Tsou, Chun-Hsien Fei, Huo-Sheng Chiou, U‐Ser Jeng, Yee‐Shin Lin, Woei‐Jer Chuang, Jiunn-Jong Wu, Shuying Wang
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0026792

Novel Adiponectin Variants Identified in Type 2 Diabetic Patients Reveal Multimerization and Secretion Defects
Cited by: 13
Author(s): Prapaporn Jungtrakoon, Nattachet Plengvidhya, Watip Tangjittipokin, Sarin Chimnaronk, Wanisa Salaemae, Nalinee Chongjaroen, Kanjana Chanprasert, Jatuporn Sujjitjoon, Chatchawan Srisawat, Pa‐thai Yenchitsomanus
Software Mentions: 2
Published: about 14 years ago

10.1186/s13068-016-0605-z

Structural and functional characterization of a highly stable endo-β-1,4-xylanase from Fusarium oxysporum and its development as an efficient immobilized biocatalyst
Cited by: 18
Author(s): Sara Gómez, Asia M. Payne, Martin Savko, Gavin C. Fox, William Shepard, Francisco Fernández, M. Cristina Vega
Software Mentions: 2
Published: about 9 years ago

10.1126/sciadv.abc1370

The structural basis for Z α 1 -antitrypsin polymerization in the liver
Cited by: 23
Author(s): Sarah V. Faull, Emma Elliston, Bibek Gooptu, Alistair M. Jagger, Ibrahim Aldobiyan, Adam Redzej, Magd Badaoui, Nina Heyer-Chauhan, S. Tamir Rashid, Gary Reynolds, David Adams, Elena Miranda, Elena V. Orlova, James A. Irving, David A. Lomas
Software Mentions: 2
Published: about 5 years ago

10.1111/1744-7917.12564

Comparative analysis of C‐type lectin domain proteins in the ghost moth, Thitarodes xiaojinensis (Lepidoptera: Hepialidae)
Cited by: 18
Author(s): Qian Meng, Ji‐Hong Zhang, Huan Zhang, Guiling Zhou, Ruoyao Ni, Yanni Zhao, Qilian Qin, Zhen Zou
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0056742

Towards Improved Quality of GPCR Models by Usage of Multiple Templates and Profile-Profile Comparison
Cited by: 50
Author(s): Dorota Latek, Paweł Pasznik, Teresa Carlomagno, Sławomir Filipek
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pcbi.1008060

REDCRAFT: A computational platform using residual dipolar coupling NMR data for determining structures of perdeuterated proteins in solution
Cited by: 8
Author(s): Casey A. Cole, Nourhan S. Daigham, Gaohua Liu, Gaetano T. Montelione, Homayoun Valafar
Software Mentions: 2
Published: almost 5 years ago

10.1038/srep18462

Cancer associated missense mutations in BAP1 catalytic domain induce amyloidogenic aggregation: A new insight in enzymatic inactivation
Cited by: 38
Author(s): Sushmita Bhattacharya, Pranita Hanpude, Tushar Kanti Maiti
Software Mentions: 2
Published: almost 10 years ago

10.1038/s41598-018-32217-4

Genetic analysis of ATP13A2, PLA2G6 and FBXO7 in a cohort of Chinese patients with early-onset Parkinson’s disease
Cited by: 10
Author(s): Ting Shen, Jiali Pu, Hsin-Yi Lai, Lingjia Xu, Xiaoli Su, Yaping Yan, Yasi Jiang, Baorong Zhang
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-018-35590-2

Reconstructing the evolutionary history of F420-dependent dehydrogenases
Cited by: 17
Author(s): María Laura Mascotti, Hemant Kumar, Quốc Thái Nguyễn, Maximiliano Juri Ayub, Marco W. Fraaije
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0123195

An Unexpected Mode Of Binding Defines BMS948 as A Full Retinoic Acid Receptor β (RARβ, NR1B2) Selective Agonist
Cited by: 12
Author(s): Nadendla EswarKumar, Catherine Teyssier, V. Delfosse, Valérie Vivat, Krishnasamy Gunasekaran, Hinrich Gronemeyer, William Bourguet, Pierre Germain
Software Mentions: 2
Published: over 10 years ago

10.1038/srep08372

Crystal structure of VmoLac, a tentative quorum quenching lactonase from the extremophilic crenarchaeon Vulcanisaeta moutnovskia
Cited by: 38
Author(s): Julien Hiblot, Janek Bzdrenga, Charlotte Champion, Éric Chabrière, Mikael Elias
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pcbi.1006959

Ten quick tips for using a Raspberry Pi
Cited by: 10
Author(s): Anthony C. Fletcher, Cameron Mura
Software Mentions: 2
Published: over 6 years ago

10.1007/s00018-019-03150-0

The PCNA interaction motifs revisited: thinking outside the PIP-box
Cited by: 69
Author(s): Andreas Prestel, Nanna Wichmann, João M. Martins, Riccardo Marabini, Noah Kassem, Sebastian S. Broendum, Marit Otterlei, Olaf Nielsen, Martin Willemoës, Michael Ploug, Wouter Boomsma
Software Mentions: 2
Published: over 6 years ago

10.1016/j.chom.2020.06.010

Neutralization of SARS-CoV-2 by Destruction of the Prefusion Spike
Cited by: 280
Author(s): Jiandong Huo, Yuguang Zhao, Jingshan Ren, Daming Zhou, Duyvesteyn Hme., H. Ginn, L. Carrique, Tomas Malinauskas, R.R. Ruza, Pranav N.M. Shah, Tiong Kit Tan, Pramila Rijal, Naomi Coombes, Kevin R. Bewley, Julia A. Tree, Julika Radecke, Neil G. Paterson, Piyasa Supasa, Juthathip Mongkolsapaya, Gavin Screaton, Miles W. Carroll, Alain Townsend, Elizabeth E. Fry, Raymond J. Owens, D.I. Stuart
Software Mentions: 2
Published: about 5 years ago

10.3390/vaccines9060658

Integrated Core Proteomics, Subtractive Proteomics, and Immunoinformatics Investigation to Unveil a Potential Multi-Epitope Vaccine against Schistosomiasis
Cited by: 28
Author(s): Abdur Rehman, Sajjad Ahmad, Farah Shahid, Aqel Albutti, Ameen S. S. Alwashmi, Mohammad Aljasir, Naif Alhumeed, Muhammad Qasim, Usman Ali Ashfaq, Muhammad Tahir ul Qamar
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms22116063

Mutations in bdcA and valS Correlate with Quinolone Resistance in Wastewater Escherichia coli
Cited by: 2
Author(s): Negin Malekian, Ali Al-Fatlawi, Thomas U. Berendonk, Michael Schroeder
Software Mentions: 2
Published: over 4 years ago

10.1042/BSR20140174

Structural characterization of the late competence protein ComFB from Bacillus subtilis
Cited by: 9
Author(s): Tatyana A. Sysoeva, Lukas B. Bane, Di Xiao, Baundauna Bose, Scott Chilton, Rachelle Gaudet, Briana M. Burton
Software Mentions: 2
Published: over 10 years ago

10.3390/nu11010067

Structural Insights into Phylloquinone (Vitamin K1), Menaquinone (MK4, MK7), and Menadione (Vitamin K3) Binding to VKORC1
Cited by: 16
Author(s): Nolan Chatron, Abdessalem Hammed, Etienne Benoît, Virginie Lattard
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-019-41582-7

Highly Mutable Linker Regions Regulate HIV-1 Rev Function and Stability
Cited by: 12
Author(s): Bhargavi Jayaraman, Jason D Fernandes, Sen Yang, Cynthia L. Smith, Alan D. Frankel
Software Mentions: 2
Published: over 6 years ago

10.3390/vaccines6010001

Structural Analysis and Epitope Prediction of MHC Class-1-Chain Related Protein-A for Cancer Vaccine Development
Cited by: 16
Author(s): Tayo Alex Adekiya, Raphael Taiwo Aruleba, Sbonelo Khanyile, Priscilla Masamba, Babatunji Emmanuel Oyinloye, Abidemi Paul Kappo
Software Mentions: 2
Published: almost 8 years ago

10.3390/ijms22042211

Identification of Active Site Residues of the Siderophore Synthesis Enzyme PvdF and Evidence for Interaction of PvdF with a Substrate-Providing Enzyme
Cited by: 3
Author(s): Priya Philem, Torsten Kleffmann, Sinan Gai, Bill C. Hawkins, Sigurd M. Wilbanks, Iain L. Lamont
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms22041711

Synthesis and Biological Evaluation of Oleanolic Acid Derivatives as Selective Vascular Endothelial Growth Factor Promoter i-Motif Ligands
Cited by: 4
Author(s): Huang Zeng, Shuangshuang Kang, Yu Zhang, Ke Liu, Qian Yu, Ding Li, Lin‐Kun An
Software Mentions: 2
Published: almost 5 years ago

10.3390/ijms22105408

KEAP1 Cancer Mutants: A Large-Scale Molecular Dynamics Study of Protein Stability
Cited by: 5
Author(s): Carter J. Wilson, Megan Chang, Mikko Karttunen, Wing‐Yiu Choy
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms21218066

Alpha-Carbonic Anhydrases from Hydrothermal Vent Sources as Potential Carbon Dioxide Sequestration Agents: In Silico Sequence, Structure and Dynamics Analyses
Cited by: 6
Author(s): Colleen Varaidzo Manyumwa, Reza Zolfaghari Emameh, Özlem Tastan Bishop
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms21165915

Biochemical Characterization and Crystal Structure of a Novel NAD+-Dependent Isocitrate Dehydrogenase from Phaeodactylum tricornutum
Cited by: 5
Author(s): Shiping Huang, Luchun Zhou, Bin Wen, Peng Wang
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms21197261

Atomistic Structure and Dynamics of the Ca2+-ATPase Bound to Phosphorylated Phospholamban
Cited by: 6
Author(s): Rodrigo Aguayo‐Ortiz, L. Michel Espinoza-Fonseca
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms22115895

In-Silico Evaluation of Genetic Alterations in Ovarian Carcinoma and Therapeutic Efficacy of NSC777201, as a Novel Multi-Target Agent for TTK, NEK2, and CDK1
Cited by: 8
Author(s): Harshita Khedkar, Yu-Chi Wang, Vijesh Kumar Yadav, Prateeti Srivastava, Bashir Lawal, Ntlotlang Mokgautsi, Maryam Rachmawati Sumitra, Alexander T.H. Wu, Hsu-Shan Huang
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms18071336

Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin
Cited by: 9
Author(s): Ashwani Sharma, Gonzalo Sáez-Calvo, Natacha Olieric, Francisco de Asís Balaguer, Isabel Barasoaín, Clemens Lamberth, J. Fernando Díaz, Michel O. Steinmetz
Software Mentions: 2
Published: over 8 years ago

10.3390/ijms17122116

Discovery of a New Class of Cathepsin K Inhibitors in Rhizoma Drynariae as Potential Candidates for the Treatment of Osteoporosis
Cited by: 17
Author(s): Zuo-Cheng Qiu, Xiaoli Dong, Yi Dai, Gao Keng Xiao, Xin Luan Wang, Ka-Chun Wong, Man Sau Wong, Xin Yao
Software Mentions: 2
Published: almost 9 years ago

10.3390/ijms19010224

Genome-Wide Identification, Expression, and Functional Analysis of the Alkaline/Neutral Invertase Gene Family in Pepper
Cited by: 23
Author(s): Long-Bin Shen, Yuan Yao, He Huang, Yuling Qin, Ziji Liu, Liu Weixia, Zhiqiang Qi, Yang Liu, Zhen-Mu Cao, Yan Yang
Software Mentions: 2
Published: almost 8 years ago

10.3390/ijms17040446

Structure of the PLP-Form of the Human Kynurenine Aminotransferase II in a Novel Spacegroup at 1.83 Å Resolution
Cited by: 13
Author(s): Alireza Nematollahi, Guorong Sun, S.J. Harrop, Jane R. Hanrahan, W. Bret Church
Software Mentions: 2
Published: over 9 years ago

10.1042/BSR20180231

Cysteine modifiers suggest an allosteric inhibitory site on the CAL PDZ domain
Cited by: 8
Author(s): Yu Zhao, Patrick R. Cushing, David C. Smithson, Maria Pellegrini, Alexandre A. Pletnev, Sahar Al-Ayyoubi, Andrew V. Grassetti, Scott A. Gerber, R. Kiplin Guy, Dean R. Madden
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms21197081

Impact of HLA-DR Antigen Binding Cleft Rigidity on T Cell Recognition
Cited by: 5
Author(s): Christopher Szeto, Joseph Bloom, Hannah Sloane, Christian A. Lobos, James Fodor, Dhilshan Jayasinghe, D.S.M. Chatzileontiadou, Emma J. Grant, Ashley M. Buckle, Stéphanie Gras
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0218210

Plasmodium falciparum glutamate dehydrogenase is genetically conserved across eight malaria endemic states of India: Exploring new avenues of malaria elimination
Cited by: 9
Author(s): Amreen Ahmad, Anil Verma, Sri Krishna, Anjana Sharma, Neeru Singh, Praveen K. Bharti
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21217843

Structural Insights into the Interactions of Candidal Enolase with Human Vitronectin, Fibronectin and Plasminogen
Cited by: 26
Author(s): Dorota Satała, Grzegorz Satała, Justyna Karkowska‐Kuleta, Michał Bukowski, Anna Kluza, Maria Rapała‐Kozik, Andrzej Kozik
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms21249701

Origin and Evolution of the Human Bcl2-Associated Athanogene-1 (BAG-1)
Cited by: 4
Author(s): Peter Q. Nguyen, Kyle Hess, Larissa Smulders, Dat Le, Carolina Briseno, Christina M Chavez, Nikolas Nikolaidis
Software Mentions: 2
Published: almost 5 years ago

10.3390/ijms22020650

Comparative Analysis of Transcriptome and sRNAs Expression Patterns in the Brachypodium distachyon—Magnaporthe oryzae Pathosystems
Cited by: 15
Author(s): Silvia Zanini, Ena Šečić, Tobias Busche, Matteo Galli, Ying Zheng, Jörn Kalinowski, Karl‐Heinz Kogel
Software Mentions: 2
Published: almost 5 years ago

10.1093/ve/veab061

Adaptation of the endemic coronaviruses HCoV-OC43 and HCoV-229E to the human host
Cited by: 10
Author(s): Diego Forni, Rachele Cagliani, Federica Arrigoni, Martino Benvenuti, Alessandra Mozzi, Diego Forni, Mario Clerici, Luca De Gioia, Manuela Sironi
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms22063219

Crystal Structure of a Phospholipase D from the Plant-Associated Bacteria Serratia plymuthica Strain AS9 Reveals a Unique Arrangement of Catalytic Pocket
Cited by: 7
Author(s): Fanghua Wang, Siyu Liu, Xuejing Mao, Ruiguo Cui, Bo Yang, Yonghua Wang
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms14011788

Modeling of Anopheles minimus Mosquito NADPH-Cytochrome P450 Oxidoreductase (CYPOR) and Mutagenesis Analysis
Cited by: 8
Author(s): Songklod Sarapusit, Panida Lertkiatmongkol, Panida Duangkaew, Pornpimol Rongnoparut
Software Mentions: 2
Published: almost 13 years ago

10.3390/ijms22136910

Mutagenic Analysis of the Putative ABCC6 Substrate-Binding Cavity Using a New Homology Model
Cited by: 8
Author(s): Flóra Szeri, Valentina Corradi, Fatemeh Niaziorimi, Sylvia Donnelly, Gwenaëlle Conseil, Susan P. C. Cole, D. Peter Tieleman, Koen van de Wetering
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-021-91069-7

Combination of consensus and ensemble docking strategies for the discovery of human dihydroorotate dehydrogenase inhibitors
Cited by: 8
Author(s): Garri Chilingaryan, Narek Abelyan, A. A. Sargsyan, Karen Nazaryan, Andre Serobian, Hovakim Zakaryan
Software Mentions: 2
Published: over 4 years ago

10.1007/s00018-019-03211-4

Discovering the chloride pathway in the CFTR channel
Cited by: 14
Author(s): Bianka Farkas, Hedvig Tordai, Rita Padányi, Attila Tordai, János Gera, Gábor Paragi, Tamás Hegedüs
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-41300-3

An engineered GH1 β-glucosidase displays enhanced glucose tolerance and increased sugar release from lignocellulosic materials
Cited by: 33
Author(s): Clelton A. Santos, M.A.B. Morais, Oliver M. Terrett, Jan J. Lyczakowski, L.M. Zanphorlin, Jaire A. Ferreira-Filho, C.C.C. Tonoli, Mário Tyago Murakami, Paul Dupree, Anete Pereira de Souza
Software Mentions: 2
Published: over 6 years ago

10.1186/s13068-018-1321-7

Cellulose-specific Type B carbohydrate binding modules: understanding oligomeric and non-crystalline substrate recognition mechanisms
Cited by: 4
Author(s): Abhishek A. Kognole, Christina M. Payne
Software Mentions: 2
Published: almost 7 years ago

10.1186/s13068-019-1457-0

The GMC superfamily of oxidoreductases revisited: analysis and evolution of fungal GMC oxidoreductases
Cited by: 77
Author(s): Leander Sützl, Gabriel Foley, Elizabeth M. J. Gillam, Mikael Bodén, Dietmar Haltrich
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-39301-3

Exploration of inositol 1,4,5-trisphosphate (IP3) regulated dynamics of N-terminal domain of IP3 receptor reveals early phase molecular events during receptor activation
Cited by: 7
Author(s): Aneesh Chandran, Xavier Chee, David L. Prole, Taufiq Rahman
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms16059354

A Moonlighting Human Protein Is Involved in Mitochondrial Import of tRNA
Cited by: 19
Author(s): Maria V. Baleva, Gowher Ali, Piotr Kamenski, Ivan Tarassov, Nina Entelis, Benoı̂t Masquida
Software Mentions: 2
Published: over 10 years ago

10.3390/ijms21114146

Linking Biochemical and Structural States of SERCA: Achievements, Challenges, and New Opportunities
Cited by: 32
Author(s): Rodrigo Aguayo‐Ortiz, L. Michel Espinoza-Fonseca
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.57887

The architecture of EMC reveals a path for membrane protein insertion
Cited by: 72
Author(s): John P. O’Donnell, Ben P. Phillips, Yuichi Yagita, Szymon Juszkiewicz, Armin Wagner, Duccio Malinverni, Robert J. Keenan, Elizabeth A. Miller, Ramanujan S. Hegde
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.03648

The membrane-associated proteins FCHo and SGIP are allosteric activators of the AP2 clathrin adaptor complex
Cited by: 67
Author(s): Gunther Hollopeter, Jeffrey J. Lange, Ying Zhang, Thien N Vu, Mingyu Gu, Michael Ailion, Eric J. Lambie, Brian D. Slaughter, Jay R. Unruh, Laurence Florens, Erik M. Jørgensen
Software Mentions: 2
Published: about 11 years ago

10.7554/eLife.41845

Cryo-EM structure of the mechanically activated ion channel OSCA1.2
Cited by: 106
Author(s): Sebastian Jojoa-Cruz, Kei Saotome, Swetha E. Murthy, Che Chun Tsui, Mark S. P. Sansom, Ardem Patapoutian, Andrew B. Ward
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0221915

First eight residues of apolipoprotein A-I mediate the C-terminus control of helical bundle unfolding and its lipidation
Cited by: 6
Author(s): Gregory Brubaker, Shuhui Wang Lorkowski, Kailash Gulshan, Stanley L. Hazen, Valentin Gogonea, Jonathan Smith
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0026251

Structural Analysis of Prolyl Oligopeptidases Using Molecular Docking and Dynamics: Insights into Conformational Changes and Ligand Binding
Cited by: 28
Author(s): Sushmita Kaushik, Ramanathan Sowdhamini
Software Mentions: 2
Published: almost 14 years ago

10.1371/journal.pcbi.1003379

Decipher the Mechanisms of Protein Conformational Changes Induced by Nucleotide Binding through Free-Energy Landscape Analysis: ATP Binding to Hsp70
Cited by: 29
Author(s): Adrien Nicolaı̈, Patrice Delarue, Patrick Senet
Software Mentions: 2
Published: almost 12 years ago

10.7554/eLife.62117

Structural basis for transcription complex disruption by the Mfd translocase
Cited by: 31
Author(s): Jin Young Kang, Eliza Llewellyn, James Chen, Paul Dominic B. Olinares, Joshua Brewer, Brian T. Chait, Elizabeth A. Campbell, Seth A. Darst
Software Mentions: 2
Published: almost 5 years ago

10.1186/s13068-019-1449-0

An actinobacteria lytic polysaccharide monooxygenase acts on both cellulose and xylan to boost biomass saccharification
Cited by: 30
Author(s): Thamy Lívia Ribeiro Corrêa, Atílio Tomazini Júnior, L. D. Wolf, Marcos Silveira Buckeridge, Leandro Vieira dos Santos, Mário Tyago Murakami
Software Mentions: 2
Published: over 6 years ago

10.1016/j.bpj.2015.02.013

Capsaicin Interaction with TRPV1 Channels in a Lipid Bilayer: Molecular Dynamics Simulation
Cited by: 71
Author(s): Sonya M. Hanson, Simon Newstead, Kenton J. Swartz, Mark S.P. Sansom
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0021614

LRR Conservation Mapping to Predict Functional Sites within Protein Leucine-Rich Repeat Domains
Cited by: 47
Author(s): Laura Helft, V. Dashwantha Reddy, Xiyang Chen, Teresa Koller, L. Federici, Juan Fernández‐Recio, Rishabh Gupta, Andrew F. Bent
Software Mentions: 2
Published: over 14 years ago

10.1186/s13068-017-1009-4

Determination of the native features of the exoglucanase Cel48S from Clostridium thermocellum
Cited by: 21
Author(s): Yajun Li, Shiyue Liu, Sheng Dong, Renmin Li, Yingang Feng, Qiu Cui
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0158702

Membrane Mediated Antimicrobial and Antitumor Activity of Cathelicidin 6: Structural Insights from Molecular Dynamics Simulation on Multi-Microsecond Scale
Cited by: 13
Author(s): Bikash R. Sahoo, Toshimichi Fujiwara
Software Mentions: 2
Published: over 9 years ago

10.1080/14756366.2017.1370584

Characterization of human S-adenosyl-homocysteine hydrolase in vitro and identification of its potential inhibitors
Cited by: 2
Author(s): Weiwei Hao, Yanhua Li, Qiuli Shan, Ting Han, Wencheng Li, Sheng He, Kongkai Zhu, Yumei Li, Xiaojun Tan, Jinsong Gu
Software Mentions: 2
Published: almost 9 years ago

10.1007/s10822-015-9839-2

Statistical dictionaries for hypothetical in silico model of the early-stage intermediate in protein folding
Cited by: 8
Author(s): Barbara Kalinowska, Piotr Fabian, Katarzyna Stąpor, Irena Roterman
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0076355

Crystal Structure of the Human Short Coiled Coil Protein and Insights into SCOC-FEZ1 Complex Formation
Cited by: 6
Author(s): Caroline Behrens, Beyenech Binotti, Carla Schmidt, Carol V. Robinson, John Jia En Chua, Karin Kühnel
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0050097

Structure of the Human Discs Large 1 PDZ2– Adenomatous Polyposis Coli Cytoskeletal Polarity Complex: Insight into Peptide Engagement and PDZ Clustering
Cited by: 8
Author(s): Kevin C. Slep
Software Mentions: 2
Published: almost 13 years ago

10.7554/eLife.48822

Crystal structure of dopamine receptor D4 bound to the subtype selective ligand, L745870
Cited by: 19
Author(s): Ye Zhou, Chuanai Cao, Lingli He, Xianping Wang, Xuejun C. Zhang
Software Mentions: 2
Published: almost 6 years ago

10.3390/v11020108

Whole Genome Sequencing of A(H3N2) Influenza Viruses Reveals Variants Associated with Severity during the 2016–2017 Season
Cited by: 31
Author(s): Bruno Simon, Maxime Pichon, Martine Valette, Gwendolyne Burfin, Mathilde Richard, Bruno Lina, Laurence Josset
Software Mentions: 2
Published: almost 7 years ago

10.7554/eLife.22709

Chlamydia interfere with an interaction between the mannose-6-phosphate receptor and sorting nexins to counteract host restriction
Cited by: 58
Author(s): Cherilyn A. Elwell, Nadine Czudnochowski, John Von Dollen, Jeffrey R. Johnson, Rachel Nakagawa, Kathleen M. Mirrashidi, Nevan J. Krogan, Joanne N. Engel, Oren S. Rosenberg
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.42400

DNA translocation mechanism of an XPD family helicase
Cited by: 32
Author(s): Kaiying Cheng, Dale B. Wigley
Software Mentions: 2
Published: almost 7 years ago

10.3390/ijms130810010

Effects of a Buried Cysteine-To-Serine Mutation on Yeast Triosephosphate Isomerase Structure and Stability
Cited by: 6
Author(s): Alejandra Hernández-Santoyo, Lenin Domínguez-Ramírez, César A. Reyes-López, Edith González-Mondragón, Andrés Hernández‐Arana, Adela Rodrı́guez-Romero
Software Mentions: 2
Published: over 13 years ago

10.4172/2155-6148.1000218

Human μ Opioid Receptor Models with Evaluation of the Accuracy Using the Crystal Structure of the Murine μ Opioid Receptor
Cited by: 3
Author(s): Jose Manuel Perez‐Aguilar, Jeffery G. Saven, Renyu Liu
Software Mentions: 2
Published: almost 14 years ago

10.3390/ijms22115920

Anti-Inflammatory Effect of Auranofin on Palmitic Acid and LPS-Induced Inflammatory Response by Modulating TLR4 and NOX4-Mediated NF-κB Signaling Pathway in RAW264.7 Macrophages
Cited by: 20
Author(s): Hyun Hwangbo, Seon Yeong Ji, Min Yeong Kim, So Young Kim, Hyesook Lee, Gi‐Young Kim, Suhkmann Kim, JaeHun Cheong, You‐Jin Jeon
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.22311

Structural basis for the hijacking of endosomal sorting nexin proteins by Chlamydia trachomatis
Cited by: 53
Author(s): Blessy Paul, Hyunsung Kim, Markus C. Kerr, Wilhelmina M. Huston, Rohan D. Teasdale, Brett M. Collins
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.51898

Structural insights into mRNA reading frame regulation by tRNA modification and slippery codon–anticodon pairing
Cited by: 25
Author(s): Eric D. Hoffer, Sung Il Hong, S. Sunita, Tatsuya Maehigashi, Ruben L Gonzalez, Paul C. Whitford, C.M. Dunham
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.57127

Structure of substrate-bound SMG1-8-9 kinase complex reveals molecular basis for phosphorylation specificity
Cited by: 20
Author(s): L.M. Langer, Yair Gat, Fabien Bonneau, Elena Conti
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.41124

Structures in multiple conformations reveal distinct transition metal and proton pathways in an Nramp transporter
Cited by: 45
Author(s): Aaron T. Bozzi, Christina M. Zimanyi, John M. Nicoludis, Brandon K Lee, Casey H Zhang, Rachelle Gaudet
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pgen.1002484

Structural Basis of Transcriptional Gene Silencing Mediated by Arabidopsis MOM1
Cited by: 22
Author(s): Takehiro Nishimura, Guillaume Molinard, Tom J. Petty, Larissa Broger, Caroline Gabus, Thanos D. Halazonetis, Stéphane Thore, Jerzy Paszkowski
Software Mentions: 2
Published: almost 14 years ago

10.7554/eLife.63230

Optimized Vivid-derived Magnets photodimerizers for subcellular optogenetics in mammalian cells
Cited by: 31
Author(s): Lorena Benedetti, Jonathan S. Marvin, Hanieh Falahati, Andres Guillén-Samander, Loren L. Looger, Pietro De Camilli
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.35677

Specific Eph receptor-cytoplasmic effector signaling mediated by SAM–SAM domain interactions
Cited by: 30
Author(s): Yue Wang, Yuan Shang, Jianchao Li, Weidi Chen, Gang Li, Jun Wan, Wei Liu, Mingjie Zhang
Software Mentions: 2
Published: over 7 years ago

10.7554/eLife.39213

Cryo-EM structure of respiratory complex I at work
Cited by: 90
Author(s): Kristian Parey, Ulrich Brandt, Hao Xie, Deryck J. Mills, Karin Siegmund, Janet Vonck, Werner Kühlbrandt, Volker Zickermann
Software Mentions: 2
Published: about 7 years ago

Projects: pypi: PyMOL

Science Score: 90/100

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Papers Mentioning PyMOL 8,266